\select@language {brazil}
\contentsline {chapter}{\numberline {1}INTRODU\c C\~AO}{1}{chapter.1}
\contentsline {section}{\numberline {1.1}Vis\~ao geral}{1}{section.1.1}
\contentsline {section}{\numberline {1.2}Objetivo, motiva\c c\~ao e justificativa }{2}{section.1.2}
\contentsline {section}{\numberline {1.3}Organiza\c c\~ao do trabalho}{2}{section.1.3}
\contentsline {chapter}{\numberline {2}Fundamenta\c c\~ao Te\'orica}{3}{chapter.2}
\contentsline {section}{\numberline {2.1}Biologia Computacional }{3}{section.2.1}
\contentsline {subsection}{\numberline {2.1.1}DNA}{4}{subsection.2.1.1}
\contentsline {subsection}{\numberline {2.1.2}Alelos}{5}{subsection.2.1.2}
\contentsline {section}{\numberline {2.2}Melhoramento Gen\'etico de Plantas}{5}{section.2.2}
\contentsline {subsection}{\numberline {2.2.1}Melhoramento Gen\'etico de Cana-de-A\c c\'ucar}{5}{subsection.2.2.1}
\contentsline {subsection}{\numberline {2.2.2}Marcadores Moleculares}{5}{subsection.2.2.2}
\contentsline {subsubsection}{Aplica\c c\~ao em Plantas}{6}{section*.9}
\contentsline {subsection}{\numberline {2.2.3}Marcadores Microssat\'elites}{6}{subsection.2.2.3}
\contentsline {subsection}{\numberline {2.2.4}PCR}{6}{subsection.2.2.4}
\contentsline {section}{\numberline {2.3}C\'alculo de Similaridade entre Esp\'ecies Vegetais}{7}{section.2.3}
\contentsline {subsection}{\numberline {2.3.1}Coeficientes de Similaridade}{7}{subsection.2.3.1}
\contentsline {subsection}{\numberline {2.3.2}Coeficientes de Similaridade Jaccard}{8}{subsection.2.3.2}
\contentsline {subsection}{\numberline {2.3.3}An\'alise de agrupamentos}{8}{subsection.2.3.3}
\contentsline {chapter}{\numberline {3}Trabalhos Relacionados}{11}{chapter.3}
\contentsline {section}{\numberline {3.1}FASTA}{11}{section.3.1}
\contentsline {section}{\numberline {3.2}BLAST}{11}{section.3.2}
\contentsline {section}{\numberline {3.3}Pfam (Protein Families Database)}{12}{section.3.3}
\contentsline {section}{\numberline {3.4}ClustalW (alinhamento de sequ\^encias de prote\IeC {\'\i }nas ou DNA) }{12}{section.3.4}
\contentsline {section}{\numberline {3.5}Primer 3}{12}{section.3.5}
\contentsline {section}{\numberline {3.6}Phred/Phrap/Consed }{12}{section.3.6}
\contentsline {chapter}{\numberline {4}Software Proposto}{13}{chapter.4}
\contentsline {section}{\numberline {4.1}Metodologia Utilizada}{13}{section.4.1}
\contentsline {subsection}{\numberline {4.1.1}Zend Framework}{14}{subsection.4.1.1}
\contentsline {subsubsection}{Por Que Usar um \textit {Framework}?}{14}{section*.10}
\contentsline {subsubsection}{Por que Zend Framework?}{14}{section*.11}
\contentsline {subsubsection}{MVC}{14}{section*.12}
\contentsline {subsubsection}{Zend Layout}{15}{section*.13}
\contentsline {subsubsection}{Zend Form}{15}{section*.14}
\contentsline {subsubsection}{Arquivo de configura\c c\~ao}{15}{section*.15}
\contentsline {section}{\numberline {4.2}Requisitos e estrutura do sistema}{16}{section.4.2}
\contentsline {subsection}{\numberline {4.2.1}Diagrama de casos de uso}{16}{subsection.4.2.1}
\contentsline {subsection}{\numberline {4.2.2}Diagrama de classes}{16}{subsection.4.2.2}
\contentsline {subsection}{\numberline {4.2.3}Diagrama de sequ\^encia}{17}{subsection.4.2.3}
\contentsline {section}{\numberline {4.3}Vis\~ao geral do sistema}{18}{section.4.3}
\contentsline {subsection}{\numberline {4.3.1}Tela Inicial}{18}{subsection.4.3.1}
\contentsline {subsection}{\numberline {4.3.2}Sistema de Login}{18}{subsection.4.3.2}
\contentsline {subsection}{\numberline {4.3.3}Ambiente do Usu\'ario}{18}{subsection.4.3.3}
\contentsline {subsubsection}{Cadastro de Novos Marcadores}{18}{section*.16}
\contentsline {subsubsection}{Lista de SSR}{19}{section*.17}
\contentsline {subsubsection}{Inserir An\'alise}{19}{section*.18}
\contentsline {subsection}{\numberline {4.3.4}An\'alise Gen\'etica}{20}{subsection.4.3.4}
\contentsline {subsubsection}{Compara\c c\~ao de acessos}{20}{section*.19}
\contentsline {subsubsection}{Teste de paternidade}{21}{section*.20}
\contentsline {subsubsection}{Controle de usu\'arios}{21}{section*.21}
\contentsline {section}{\numberline {4.4}Funcionalidades}{22}{section.4.4}
\contentsline {subsection}{\numberline {4.4.1}Compara\c c\~ao de marcadores moleculares SSR}{22}{subsection.4.4.1}
\contentsline {subsubsection}{Marcadores moleculares SSR}{22}{section*.22}
\contentsline {subsubsection}{Escolha dos marcadores}{23}{section*.23}
\contentsline {subsubsection}{Cria\c c\~ao da matriz de caracter\IeC {\'\i }sticas}{24}{section*.24}
\contentsline {subsubsection}{Cria\c c\~ao da matriz de dist\^ancia}{25}{section*.25}
\contentsline {subsection}{\numberline {4.4.2}Teste de paternidade}{25}{subsection.4.4.2}
\contentsline {subsection}{\numberline {4.4.3}Autentica\c c\~ao usando a classe Zend\_Auth}{25}{subsection.4.4.3}
\contentsline {chapter}{\numberline {5}Trabalhos Futuros}{27}{chapter.5}
\contentsline {section}{\numberline {5.1}Ambiente compartilhado de pesquisa}{27}{section.5.1}
\contentsline {section}{\numberline {5.2}Cria\c c\~ao de dendogramas}{27}{section.5.2}
\contentsline {chapter}{\numberline {6}Conclus\~ao}{28}{chapter.6}
